Locus 2429

Sequence ID 3L_DroMel_CAF1
Location 6,845,716 – 6,845,809
Length 93
Max. P 0.832413
window3751 window3752

overview

Window 1

Location 6,845,716 – 6,845,809
Length 93
Sequences 4
Columns 104
Reading direction forward
Mean pairwise identity 84.43
Mean single sequence MFE -35.30
Consensus MFE -25.98
Energy contribution -26.17
Covariance contribution 0.19
Combinations/Pair 1.10
Mean z-score -1.93
Structure conservation index 0.74
SVM decision value 0.72
SVM RNA-class probability 0.832413
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6845716 93 + 23771897
CGGAGCCACUCUACGUGGAUGUGGCUUCUUGGCUCCUUGGCUGCUCUUUCGAUUCGGGUUUGAGUGCCAG------UCAGAGUCUGAGUCAGUUGGUCG-----
.(((((((((((....))).))))))))..((((..(((((((((((...(((...(((......))).)------)))))))...))))))..)))).----- ( -33.40)
>DroSec_CAF1 101912 85 + 1
CGGAGCCACUCUACGUGGAUGUGGCUCC--------UUGGUUGCUCUUUCGAUUCGGUUUUGAGUCCCAG------UCAGAGUCUGAGUCAGUUGGUCG-----
.(((((((((((....))).))))))))--------..............(((((((((((((.......------)))))).))))))).........----- ( -30.30)
>DroSim_CAF1 106451 93 + 1
CGGAGCCACUCUACGUGGAUGUGGCUCCUUGGCUCCUUGGCUGCUCUUUCGAUUCGGGUUUGAGUCCCAG------UCAGAGUCUGAGUCAGUUGGUCG-----
.(((((((((((....))).))))))))..((((..(((((((((((...((((.(((.......)))))------)))))))...))))))..)))).----- ( -38.50)
>DroEre_CAF1 118249 101 + 1
CGGAGCCACUCUACGUGGAUGUGGCUCCUUGCCUCCUUGGCU---CUUUCGAUUCGGGUUUGAGUCGCAGUCUGAAUGCGAGUUUGAGUCAGUUGGUCGGAUGG
.(((((((((((....))).))))))))..(((...((((((---(.((((((((((..(........)..)))))).))))...)))))))..)))....... ( -39.00)
>consensus
CGGAGCCACUCUACGUGGAUGUGGCUCCUUGGCUCCUUGGCUGCUCUUUCGAUUCGGGUUUGAGUCCCAG______UCAGAGUCUGAGUCAGUUGGUCG_____
.(((((((((((....))).))))))))..........((((...((...(((((((((((((.............))))).))))))))))..))))...... (-25.98 = -26.17 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 6,845,716 – 6,845,809
Length 93
Sequences 4
Columns 104
Reading direction reverse
Mean pairwise identity 84.43
Mean single sequence MFE -26.65
Consensus MFE -17.37
Energy contribution -18.62
Covariance contribution 1.25
Combinations/Pair 1.00
Mean z-score -1.77
Structure conservation index 0.65
SVM decision value 0.19
SVM RNA-class probability 0.625216
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6845716 93 - 23771897
-----CGACCAACUGACUCAGACUCUGA------CUGGCACUCAAACCCGAAUCGAAAGAGCAGCCAAGGAGCCAAGAAGCCACAUCCACGUAGAGUGGCUCCG
-----...............(.((((..------.((((..((......)).((....))...)))).)))).)..(.((((((.((......)))))))).). ( -22.90)
>DroSec_CAF1 101912 85 - 1
-----CGACCAACUGACUCAGACUCUGA------CUGGGACUCAAAACCGAAUCGAAAGAGCAACCAA--------GGAGCCACAUCCACGUAGAGUGGCUCCG
-----...........(((((.......------))))).............((....))........--------((((((((.((......)))))))))). ( -24.20)
>DroSim_CAF1 106451 93 - 1
-----CGACCAACUGACUCAGACUCUGA------CUGGGACUCAAACCCGAAUCGAAAGAGCAGCCAAGGAGCCAAGGAGCCACAUCCACGUAGAGUGGCUCCG
-----........((.(((.....(((.------.((((.......))))..((....)).))).....))).)).((((((((.((......)))))))))). ( -29.30)
>DroEre_CAF1 118249 101 - 1
CCAUCCGACCAACUGACUCAAACUCGCAUUCAGACUGCGACUCAAACCCGAAUCGAAAG---AGCCAAGGAGGCAAGGAGCCACAUCCACGUAGAGUGGCUCCG
((.(((.................(((((.......))))).........(..((....)---)..)..)))))...((((((((.((......)))))))))). ( -30.20)
>consensus
_____CGACCAACUGACUCAGACUCUGA______CUGGGACUCAAACCCGAAUCGAAAGAGCAGCCAAGGAGCCAAGGAGCCACAUCCACGUAGAGUGGCUCCG
........................................(((.........((....)).........)))....((((((((.((......)))))))))). (-17.37 = -18.62 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:10 2006